Back when I was playing through Meruru on the PS3 (before we had either of the FAQs we did today), I tried to compile a quick "bulk list" of all the items you had to find or alchemize to complete all the "fetch" and "create" missions through the game.
It was handy on the NG+ so I knew which items to leave with Pamela so I could buy them in bulk. (Typically did that wtih Bombs and Pies instead of trying to meet the trait requirements.) It's also a bit less overwhelming than the FAQs if all you want is a quick checklist. (Unless Krystal rewrote the guide at some point to include something like this and I missed it.)
With new quests (and possibly rebalanced requirements) in Meruru Plus, I imagine some of this info is no longer 100% accurate, but it might still have its uses.
With that in mind, reposting from the ol' http://www.gamefaqs.com/boards/625209-atelier-meruru-the-apprentice-of-arland/63015361 topic (and adding two of the quests I missed from that original list).
Optimal Create/Gather List for All Quests Combined (from June 2012, Original Meruru):
Alchemy Lamp (4 / 2 with Lightweight) Alchemy Steel (2 / 1 with Lasts Lv2) Animal Resonator (4 / 2 with Finest Goods) Balloon Tent (2 / 1 with Grade C+) Bomb (10 / 5 with Grade B+) Bomb (100 / 5 with Grade S) Chaos Conductor (2 / 1 with Grade B) Chim Doll (2 / 1 with Lively) Cloth [any type] (20 / 5 with Sturdy) Dense Wood (6 / 3 with Grade C+) Dense Wood (10 / 5 with Grade C+) Dense Wood (10 / 5 with Grade A+) Dowsing Rod (1, no traits) Dried Meat (20 / 5 with Grade B+) Eiche (20, no traits) Fireproof Plate (1, no traits) Hay (10 / 5 with Grade C+) Herbicide (6 / 3 with Grade C+) Healing Salve (10 / 5 with Heal Lv1) Homemade Pie (1, no traits) Homemade Pie (10 / 5 with Grade C+) Homemade Pie (50 / 5 with LP Recovery M) Ingot (3, no traits) Jarred Mushroom (2 / 1 with Royal Aroma) Kingdom Flag (6 / 3 with Grade C+) Land Clasp (2 / 1 with Grade A+) Living Cart (2 / 1 with Grade S) Living Hoe (6 / 3 with Earth Power) Living Pickaxe (6 / 3 with Grade B+) Living Rope (6 / 3 with Grade C+) Living Saw (4 / 2 with Grade B+) Living Shovel (4 / 2 with Grade B+) Living Shovel (1, no traits) Lumber [any type] (50 / 5 with Resist Fire Lv2) Magic Stone (2 / 1 with Lasts Lv1) Magic Stone (2 / 1 with Grade B+) Magic Stone (4 / 2 with Grade A+) Magic Stone (2 / 1 with Grade S) Mighty Filters (6 / 3 with Big) Migrane Syrup (6 / 3 with Grade B+) Mushroom Bed (2 / 1 with Grade A+) Mushroom Pie (10 / 5 with Grade C+) Mystical Garden (2 / 1 with Airy) Nectar (8 / 4 with KO Recovery M) New Land Ration (6 / 3 with HP Recovery XL) Nimbus Stone (6 / 3 with Grade B+) Preview Crystal (4 / 2 with Lightning Power) Pure Incense (4 / 2 with Hand-Crafted) Rich Soil (6 / 3 with Grade A+) Rich Soil (2 / 1 with Grade A+) Safety Box (2 / 1 with Grade A+) Salute (6 / 3 with Grade C+) Salute (6 / 3 with Blinding) Samsara Gear (6 / 3 with Quality B+) Sand Bag (10 / 5 with Grade C+) Sealing Element (6 / 3 with Holy Power) Settler's Cape (6 / 3 with Grade B+) Sky Flame (6 / 3 with Ice Power) Suction Bag (2 / 1 with Grade A+) Synthesis Piece (1, no traits) Time Flow Seed (6 / 3 with Heal Lv2) Tonic (4 / 2 with Grade B+) Tonic (10 / 5 with Item Trait Up?) Ultimate Steel (2 / 1 with Grade A+) Wind Controller (2 / 1 with Quality Lv3) Witch Salve (6 / 3 with Sleepy)
Again, this is just a "bulk list." It doesn't say WHEN you need items, just (for example) you'll need a minimum of 5 Magic Stones throughout the course of the game (or 10 if you don't fulfill any of the trait requirements).
And I probably missed at least one quest. :)
PS3/Vita: Peridot_Weapon "I don't know everything. I just happen to know this."